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| Status |
Public on May 03, 2024 |
| Title |
PC_SR_1 |
| Sample type |
SRA |
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| Source name |
Melanoma biopsy
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| Organism |
Homo sapiens |
| Characteristics |
treatment: BRAFi+MEKi
time: Before the starting of 1 cycle
tissue: Melanoma biopsy
gender: not collected
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was quantified and mixed at 10ng/µl
For RNA-seq analysis, libraries were prepared according to manufacturer's instructions (QuantSeq 3' mRNA-Seq Library Prep Kit FWD for Illumina, Lexogen GmbH) starting from 250ng of total RNA.
The amplified fragmented cDNA of 300 bp in size were sequenced in single-end mode using the NovaSeq6000 (Illumina) with a read length of 100 bp
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
the reads were trimmed toremove adapter sequences and low-quality ends and reads mapping to contaminating sequences (e.g., ribosomal RNA, phIX control) were filtered-out.
Genome_build: Hg38
Supplementary_files_format_and_content: tab-delimited text files include raw counts for each Sample
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| Submission date |
Jan 22, 2021 |
| Last update date |
May 06, 2024 |
| Contact name |
Rossella De Cegli |
| E-mail(s) |
decegli@tigem.it
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| Phone |
08119230692
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| Organization name |
Tigem
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| Street address |
Via Campi Flegrei 34
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| City |
Pozzuoli |
| ZIP/Postal code |
80078 |
| Country |
Italy |
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| Platform ID |
GPL24676 |
| Series (2) |
| GSE165337 |
Transcriptomic profile of melanoma clinical samples treated with BRAF and MEK- inhibitors |
| GSE165338 |
RNAseq and Small-RNAseq dataset to comprehensively study the miRNA expression profiling of drug-resistant melanoma patients and cell lines |
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| Relations |
| BioSample |
SAMN17496825 |
| SRA |
SRX9920572 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM5031711_S273_20200619120606_1_unique_counts.txt.gz |
113.0 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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